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US Patent No: 7691614: Method of Genome-Wide Nucleic Acid Fingerprinting of Functional Regions (Apr 2010)
US Patent No: 6846626: Method for Amplifying Sequences from Unknown DNA (Jan 2005). Also, Indian application # IN/PCT/2002/00334/DE and European application # 00959799.0.
US Patent No: 6368834 PCR genome walking with synthetic primer (Aug 2002)
US Patent No: 5994058 - Method for contiguous genome sequencing (November 1999)
US Patent No: 7056706 - Shot-gun sequencing and amplification without cloning (June 2006)
RoBuST: an integrated genomics resource for the root and bulb crop families Apiaceae and Alliaceae. A Bhasi, D Senalik, PW Simon, B Kumar, V Manikandan, P Philip, and P Senapathy, BMC Plant Biology (2010), 10:161, http://www.biomedcentral.com/1471-2229/10/161
Targeted Genome-wide Enrichment of Functional Regions. Senapathy P, Bhasi A, Mattox J, Dhandapany PS, Sadayappan S., PLoS ONE (2010) Jun 16;5(6);e11138
ExDom: an integrated database for comparative analysis of the exon-intron structures of protein domains in eukaryotes. Ashwini Bhasi et al. Nucleic Acids Research (2009) Database Issue 37:D703-D711
AspAlt: A tool for inter-database, inter-genomic and customized comparative analysis of alternative transcription and alternative splicing in eukaryotes. Ashwini Bhasi et al. Genomics (2009) 94(1):48-54
Origination of the split structure of spliceosomal genes from random genetic sequences6. R Regulapati, A Bhasi et al. PLoS ONE (2008) 3(10):e3456
EuSplice: a unified resource for the analysis of splice signals and alternative splicing in eukaryotic genes. Ashwini Bhasi et al. Bioinformatics (2007) 23:1815-23
Introns and the origin of protein-coding genes, P Senapathy. Science (1995) Jun 2;268(5215):1366-7
Distribution and consensus of branch point signals in eukaryotic genes: a computerized statistical analysis, NL Harris, P Senapathy. Nucleic Acids Res. (1990) May 25;18(10):3015-9
Splice junctions, branch point sites, and exons: sequence statistics, identification, and applications to genome project. P Senapathy, MB Shapiro, NL Harris; Methods Enzymol (1990) 183:252-78
Possible evolution of splice-junction signals in eukaryotic genes from stop codons. Senapathy P. Proc Natl Acad Sci (1988) Feb;85(4):1129-33
RNA splice junctions of different classes of eukaryotes: sequence statistics and functional implications in gene expression. Shapiro MB, Senapathy P. Nucleic Acids Res. (1987) Sep 11;15(17):7155-74
Origin of eukaryotic introns: a hypothesis based on codon distribution statistics in genes, and its implications. Senapathy P., Proc Natl Acad Sci (1986) Apr;83(7):2133-7
Automated preparation of DNA sequences for publication. Shapiro MB, Senapathy P., Nucleic Acids Res. 1986 Jan 10;14(1):65-73